Sequence
atgc intronic sequence ATGC exonic sequence...tttaccttatttgctaaagtatttctcttttgtgatttttttaatttacagaaagttgattacccactggaattggatgtttatgaattttgctctgatgAACTGAAACAGAAACTCCAAGCACCTCGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G017086_T04 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os01g36930.1 (Oryza sativa), 3'ss of exon 12
---------------------------------------------tttaccttatttgct--aaagta--tttctcttttgtgatttttttaatttacagaaagttgattacccactggaattggatgtttatgaattttgctctgatgAACTGAAACAGAAACTCCAAGCACCTCGGCAG
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aaagcttgattgattcttcttgatactgtccgctcagagttttgttctacctctttcgtttgaaaacaagttgtaatattctttcttcttttacttccagAAAGTTGATTACCCGCTGGAACTGGATGTTTATGACTTTTGCTCAGATGAACTGAAACAAAAACTCCAAGCTCCCCGACAG
upper sequence: GRMZM2G017086_T04 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 12
-----------------------------------------------------------------------------tttaccttatttgctaaagtatttctcttttgtgatttttttaattta---cagaaagttgattacccactggaattggatgtttatgaattttgctctgatgAACTGAAACAGAAACTCCAAGCACCTCGGCAG
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gtaaagctcactatctgcttttttgtgtgtgtttttggatagttattgttgagtcggacaaattatccttggaagaatttgtttgctttctgaaatttattttacaatgtcatcgtgcttggttatctcagAAAGTAGATTATCCTCTGGAGTTGGATGTTTATGATTTTTGTTCTGACGAACTTCGTAAAAAATTGGAAGCTCCTAGACAG
upper sequence: GRMZM2G017086_T04 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA08G20900.1 (Glycine max), 3'ss of exon 12
---------------------------------------------------------------------------tttaccttatttgctaaagtatttctcttt-tgtgatttttttaattta---cagaaagttgattacccactggaattggatgtttatgaattttgctctgatgAACTGAAACAGAAACTCCAAGCACCTCGGCAG
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gtagagctcactgtcttttttgtgtgtgtgtttttggatagttattgttgggttggacaaattatccttggaaagttttgtttgctttctaaagtttatttgacaatgtcatcgtgcttggttatctcagAAAGTAGATTATCCCCTGGAGTTGGATGTTTATGATTTTTGTTCAGATGATCTTCGTAAAAAATTGGATGCTCCTAGACAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|32944644|gb|CF049463.1|CF049463EST: TCGCTTC-TTTGGAAAAGGGAATCAAACCAAAAGGCAAAGA-TTTACGA AA-AGAAACAGAAACTCCAAGCACCTCGGCAG
genomic: TCGCTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCAAAGATTTTACGAgtacgttagt ... tgctctgatgAACTGAAACAGAAACTCCAAGCACCTCGGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacagaaagttgattacccactggaattggatgtttatgaattttgctctgatgAACTGAAACAGAAACTCCAAGCACCTCGGCAG
agttgat putative branch site (score: 5)
ttttgctct putative PPT
atgtttatgaatttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaccttatttgctaaagtatttctcttttgtgatttttttaatttacagaaagttgattacccactggaattggatgtttatgaattttgctctgatgAACTGAAACAGAAACTCCAAGCACCTCGGCAG
- - - - - ttgctaa
- - - - - - - - - - - - - - - tgtgatt
- - - - - - - - - - - - - - - - - - - - - - - -acagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccactgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttggatg